Template for contribution to Computo using Rmarkdown
Computo team
2021-07-25
1 Abstract
Lorem ipsum dolor sit amet, consectetur adipiscing elit. Curabitur posuere vestibulum facilisis. Aenean pretium orci augue, quis lobortis libero accumsan eu. Nam mollis lorem sit amet pellentesque ullamcorper. Curabitur lobortis libero eget malesuada vestibulum. Nam nec nibh massa. Pellentesque porttitor cursus tellus. Mauris urna erat, rhoncus sed faucibus sit amet, venenatis eu ipsum.
2 Introduction
2.1 About this document
This document provides a Rmarkdown1 template for contributions to the Computo journal. We show how R or Python code can be included.
2.2 Advice for writting your manuscript
First make sure that you are able to build your manuscript as a regular notebook on your system. Then you can start configure the binder environment.
3 Formatting
This section covers basic formatting guidelines using Rmarkdown. Rmarkdown is a simple formatting system for authoring HTML and PDF documents, that relies on the Pandoc Markdown markup language.
To render/compile a document as HTML within Rstudio, click the Knit button. A document will be generated that includes both content as well as the output of any embedded code chunks within the document.
3.1 Mathematical formulae
LaTeX code is natively supported, which makes it possible to use mathematical formulae:
\[ f(x_1, \dots, x_n; \mu, \sigma^2) = \frac{1}{\sigma \sqrt{2\pi}} \exp{\left(- \frac{1}{2\sigma^2}\sum_{i=1}^n(x_i - \mu)^2\right)} \]
3.2 Code
R code (R Core Team 2020) chunks may be embedded as follows:
x <- rnorm(10)The R code from the other code chunks in this document has been hidden from the output, but is visible from the source document.
It is also possible to include inline code. For example the mean of x is 0.0417253.
3.3 Figures
Plots can be generated as follows:
Interactive plots may also be produced in the HTML output of the document:
It is also possible to create figures from static images:
SFdS logo (c.a. 2021).
3.4 Tables
Tables can be generated as follows:
| speed | dist | |
|---|---|---|
| Min. : 4.0 | Min. : 2.00 | |
| 1st Qu.:12.0 | 1st Qu.: 26.00 | |
| Median :15.0 | Median : 36.00 | |
| Mean :15.4 | Mean : 42.98 | |
| 3rd Qu.:19.0 | 3rd Qu.: 56.00 | |
| Max. :25.0 | Max. :120.00 |
Other options for tables are listed here.
3.5 Bibliographic references
References are displayed as footnotes using BibTeX, e.g. [@computo] will be displayed as (Computo Team 2020), where computo is the bibtex key for this specific entry. The bibliographic information is automatically retrieved from the .bib file specified in the header of this document (here: template-computo-Rmarkdown.bib).
3.6 Beyond R code
Other languages can be included in Rmarkdown documents, including python, Julia and C++. In particular, the R package reticulate (Ushey, Allaire, and Tang 2020) includes a Python engine for R Markdown that enables easy interoperability between Python and R chunks. We refer to the vignette R Markdown Python Engine for a more detailed description.
4 Session information
## R version 4.1.0 (2021-05-18)
## Platform: x86_64-apple-darwin13.4.0 (64-bit)
## Running under: macOS Catalina 10.15.7
##
## Matrix products: default
## BLAS/LAPACK: /usr/local/miniconda/envs/computorbuild/lib/libopenblasp-r0.3.15.dylib
##
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] plotly_4.9.4.1 ggplot2_3.3.5
##
## loaded via a namespace (and not attached):
## [1] highr_0.9 pillar_1.6.1 compiler_4.1.0 tools_4.1.0
## [5] digest_0.6.27 viridisLite_0.4.0 jsonlite_1.7.2 lattice_0.20-44
## [9] evaluate_0.14 lifecycle_1.0.0 tibble_3.1.3 gtable_0.3.0
## [13] nlme_3.1-152 mgcv_1.8-36 pkgconfig_2.0.3 rlang_0.4.11
## [17] Matrix_1.3-4 DBI_1.1.1 crosstalk_1.1.1 yaml_2.2.1
## [21] xfun_0.24 httr_1.4.2 withr_2.4.2 stringr_1.4.0
## [25] dplyr_1.0.7 knitr_1.33 htmlwidgets_1.5.3 generics_0.1.0
## [29] vctrs_0.3.8 grid_4.1.0 tidyselect_1.1.1 data.table_1.14.0
## [33] glue_1.4.2 R6_2.5.0 fansi_0.5.0 rmarkdown_2.9
## [37] tidyr_1.1.3 farver_2.1.0 purrr_0.3.4 magrittr_2.0.1
## [41] scales_1.1.1 ellipsis_0.3.2 htmltools_0.5.1.1 splines_4.1.0
## [45] assertthat_0.2.1 colorspace_2.0-2 labeling_0.4.2 utf8_1.2.2
## [49] stringi_1.7.3 lazyeval_0.2.2 munsell_0.5.0 crayon_1.4.1